- Transcript BART1_0-u19417.017
- Transcript IDBART1_0-u19417.017
- Gene IDBART1_0-u19417
Barley RTD
Exon Structure of BART1_0-u19417.017
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 156627286 | 156626906 | - |
| chr3H | 2 | 156628586 | 156627930 | - |
| chr3H | 3 | 156628966 | 156628728 | - |
| chr3H | 4 | 156629834 | 156629587 | - |
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
Salmon TPM Values: sixteensamplesmorex
These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials
| Sample | Treatment | Rep 1 | Rep 2 | Rep 3 |
|---|---|---|---|---|
| morex | EMB | 0.63252 | 0 | 0.905567 |
| morex | ETI | 0.917591 | 0.985513 | 1.4486 |
| morex | LEA | 0 | 0.00000316559 | 0 |
| morex | EPI | 0 | 0.467792 | 0 |
| morex | ROO | 0 | 0 | 0.722485 |
| morex | ROO2 | 0.237647 | 0 | 0.296375 |
| morex | NOD | 0.562251 | 0 | 0 |
| morex | RAC | 0.287476 | 0.752066 | 0.569489 |
| morex | INF1 | 0 | 0.523522 | 0.820832 |
| morex | INF2 | 0.535753 | 0 | 0.80473 |
| morex | CAR5 | 0 | 1.02604 | 0 |
| morex | CAR15 | 0.213283 | 0.265708 | 0.298662 |
| morex | LEM | 0 | 0 | 0.084319 |
| morex | LOD | 0 | 0.115675 | 0 |
| morex | PAL | 0 | 0 | 0.244813 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g13030.2 | +1 | 4e-53 | 181 | 132/174 (76%) | protein|OsIAA3 - Auxin-responsive Aux/IAA gene family member, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g07770.1.p | +1 | 4e-79 | 248 | 141/160 (88%) | pacid=32771633 transcript=Bradi2g07770.1 locus=Bradi2g07770 ID=Bradi2g07770.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
Click here to see more tracks within GBrowse -->
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (1525 bp)
>BART1_0-u19417.017 1525 150831_barley_pseudomolecules NNNNNccgCGCGGACGACGACCTGAAAGGCACCGAGCTCCGCCTCGGACTTCCCGGCTGC GAGTCGCCGGACCGCCGCCCGGTCGCCGCCACCACCACACTGGAGCTTCTGCCCGCCAAG GGCGCCAAGCGAGGGTTCTCGGACGAGGTCCTGCCGCCTGCGCCGTCTGCCGCCGGCGGG AAAGGCAAGGAGACGTCCGGGGATGAGAAGGACAAGAAGGTCGCCGCACCGCCGCAGCCT GCTGCCAAGGCTCAGGTGGTGGGATGGCCACCAATCCGCAGCTACCGCAAGAACACGATG GCAACCACCACCAACCAGCTGAAGAGCAGCAAGGAGGATTCTGACGCGAAGCAGGGGCAA GAGTTTCTGTATGTCAAAGTCAGCATGGATGGCGCGCCTTACCTGAGGAAGGTTGACCTC AAGACATACAAGAACTATAAGGACCTGTCTCTGGGGCTAGAGAAAATGTTCATTGGCTTC AGCACCGCAAATTTCAGGTTTATGAAATTGACGAAGAAGACTCTTTTCAGGGCTGGCGAA ATTGGTTATTGTGGTGACAACCAGTTTGCGATGCCTCGCTTCTAAATTTGTCCAAGCTAT TTATGTACAAATTTGTTTTGCTAGATGCCTAGTTTCAACATATATTATTACTGGTGGAGC AAATATTCTCTTCTAATTCAAGGAGCTTTTCTTGTGTTTAATACTGATTGAGCGAGCAAC TAACAGTGTAGATTAGACTATGTCATAAACATGCCTAATGTTTAGGCTAGCATTAGCTAA GGGTCTGTAAATATCACTCAATTATTCATAAGCCTTTGATAAACAACAATTTCCCTGAAA TGTCTTCATACCTATTTTGTGCTTCAAGGTCAGACACCAAACCTACTAATTTAAAAACGT AAATTGCAGGAAGGTGTATATTTAGGGACATAAAATTTGTCAACATACCAGTGCTGTGTT AAGAAGTTTAGTGTCAGGTGGCCCTTTCTCCGGCATTTTGTTTATTTGTCCTTACATGTG GCACTGGTTCTAATTTTGTACCAGGTAAAGATGGTGTATCTGAGAACAGAAAGGATGGTG AATACGTGCTGACCTACGAAGACAAGGACGGAGACTGGATGCTGGTTGGTGACGTCCCAT GGGAGATGTTCACCGAGTCTTGCCGAAGGCTGAGGGTCATGAAAGGTTCAGATGCAGTTG GACTTGGTATGTCCAAAAGTGTTGCGATTAGTAATGCTTTTTTGTTTTAATTTCACTGAT GGCATGCCGTGCTTCCGCAGTTATTTTATTTTACCAATTGTTTTGCATCGTGTTACTGCT TTACTGTTCAAGCTGTTTCCCAGGCTTGCTTAACTATTTGAACTGCACTTGAGCGGGAAA GCAGTTTATACTCTTGAAAAGACTCGTTGTACTTAGAAGCTTGTTTAATTGGAGCTTAAA TATCTTTAAGCACCACAACATTAAATTGTGAATGTTAATTCACTTTTGTTTCTTTAATTA GAATATAGCCCCCATTCCAACTCCC
Protein Sequence (194 aa)
>BART1_0-u19417.017 194 150831_barley_pseudomolecules XXRADDDLKGTELRLGLPGCESPDRRPVAATTTLELLPAKGAKRGFSDEVLPPAPSAAGG KGKETSGDEKDKKVAAPPQPAAKAQVVGWPPIRSYRKNTMATTTNQLKSSKEDSDAKQGQ EFLYVKVSMDGAPYLRKVDLKTYKNYKDLSLGLEKMFIGFSTANFRFMKLTKKTLFRAGE IGYCGDNQFAMPRF